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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ), 'gf_id' => 'HOM05D001015', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001015' ), 'data_identifier' => 'HOM05D001015', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001015', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p09500' => 'bna', 'A03p58090' => 'bna', 'A04p26060' => 'bna', 'A05p11720' => 'bna', 'A06p07410' => 'bna', 'A07p13800' => 'bna', 'A08p20070' => 'bna', 'A08p33870' => 'bna', 'A09p05310' => 'bna', 'A09p41040' => 'bna', 'A09p64960' => 'bna', 'A10p02350' => 'bna', 'Aa31LG1G4310' => 'aar', 'Aa31LG1G9010' => 'aar', 'Aa31LG7G7640' => 'aar', 'Aa31LG9G13730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.378' => 'aag', 'Actinidia05653' => 'ach', 'Actinidia07599' => 'ach', 'Actinidia09338' => 'ach', 'Actinidia12542' => 'ach', 'Actinidia13185' => 'ach', 'Actinidia13505' => 'ach', 'Actinidia16568' => 'ach', 'Actinidia16932' => 'ach', 'Actinidia26139' => 'ach', 'Actinidia39476' => 'ach', 'Ah.01g004060' => 'amhyb', 'Ah.01g015410' => 'amhyb', 'Ah.03g132710' => 'amhyb', 'Ah.04g164530' => 'amhyb', 'Ah.14g082610' => 'amhyb', 'AL1G13370' => 'aly', 'AL1G21440' => 'aly', 'AL1G37500' => 'aly', 'AL4G29630' => 'aly', 'AL7G24130' => 'aly', 'Aqoxy3G01015' => 'aox', 'Aqoxy3G01475' => 'aox', 'Aqoxy3G02410' => 'aox', 'Aqoxy3G02422' => 'aox', 'Aqoxy3G02434' => 'aox', 'Aqoxy3G02435' => 'aox', 'Aqoxy3G02436' => 'aox', 'Aqoxy3G02972' => 'aox', 'Aqoxy4G00668' => 'aox', 'Aqoxy5G01789' => 'aox', 'Aqoxy5G01790' => 'aox', 'Aqoxy5G01791' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1SZ2FT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25ELLY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2UYJ4Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H2P1IF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PMQ43S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8ID5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TWH3WC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W02GTP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQM1P4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB2C9Z' => 'arhy', 'AT1G03810' => 'ath', 'AT1G10590' => 'ath', 'AT1G23750' => 'ath', 'AT2G33845' => 'ath', 'AT4G28440' => 'ath', 'ATR0730G094' => 'atr', 'Atru.chr11.2031' => 'acertr', 'Atru.chr2.2400' => 'acertr', 'Atru.chr6.2878' => 'acertr', 'Atru.chr6.2939' => 'acertr', 'AUR62005381' => 'cqu', 'AUR62014043' => 'cqu', 'AUR62019480' => 'cqu', 'AUR62036049' => 'cqu', 'AUR62036154' => 'cqu', 'AUR62038981' => 'cqu', 'BcaB02g10599' => 'bca', 'BcaB03g12572' => 'bca', 'BcaB03g14137' => 'bca', 'BcaB08g37363' => 'bca', 'BcaC01g01574' => 'bca', 'BcaC02g07761' => 'bca', 'BcaC02g07763' => 'bca', 'BcaC02g11463' => 'bca', 'BcaC04g23676' => 'bca', 'BcaC04g23726' => 'bca', 'BcaC05g24505' => 'bca', 'BcaC05g24506' => 'bca', 'BcaC05g24859' => 'bca', 'BcaC05g24948' => 'bca', 'BcaC05g26292' => 'bca', 'BcaC06g32622' => 'bca', 'BcaC06g35051' => 'bca', 'BcaC07g38331' => 'bca', 'BcaC07g38577' => 'bca', 'BcaC07g38614' => 'bca', 'BcaC07g41811' => 'bca', 'BcaC09g48484' => 'bca', 'BcaC09g51646' => 'bca', 'BcaNung01566' => 'bca', 'BcaNung06894' => 'bca', 'BolC1t01067H' => 'bol', 'BolC1t04889H' => 'bol', 'BolC4t23092H' => 'bol', 'BolC4t27815H' => 'bol', 'BolC5t28994H' => 'bol', 'BolC5t29639H' => 'bol', 'BolC5t30995H' => 'bol', 'BolC7t42549H' => 'bol', 'BolC7t46098H' => 'bol', 'BolC8t48760H' => 'bol', 'BolC8t49018H' => 'bol', 'BolC8t52412H' => 'bol', 'BolC9t53459H' => 'bol', 'BolC9t53505H' => 'bol', 'BraA01t00892Z' => 'bra', 'BraA03t14875Z' => 'bra', 'BraA04t18108Z' => 'bra', 'BraA05t20117Z' => 'bra', 'BraA06t23945Z' => 'bra', 'BraA07t29129Z' => 'bra', 'BraA08t33966Z' => 'bra', 'BraA09t36169Z' => 'bra', 'BraA09t39597Z' => 'bra', 'BraA09t41839Z' => 'bra', 'BraA10t42502Z' => 'bra', 'C01p11050' => 'bna', 'C01p49300' => 'bna', 'C04p15170' => 'bna', 'C04p63400' => 'bna', 'C05p02160' => 'bna', 'C05p08910' => 'bna', 'C05p22960' => 'bna', 'C07p20270' => 'bna', 'C07p56210' => 'bna', 'C08p10850' => 'bna', 'C08p13830' => 'bna', 'C08p48730' => 'bna', 'C09p05320' => 'bna', 'C09p05780' => 'bna', 'CAN.G1119.20' => 'can', 'CAN.G1246.2' => 'can', 'CAN.G507.9' => 'can', 'CAN.G529.49' => 'can', 'CAN.G702.1' => 'can', 'CAN.G702.5' => 'can', 'CAN.G702.8' => 'can', 'CAN.G79.51' => 'can', 'CAN.G79.53' => 'can', 'CANSAT01G0727' => 'cansat', 'CANSAT35G1943' => 'cansat', 'CANSAT64G0132' => 'cansat', 'CARHR003140' => 'chi', 'CARHR010770' => 'chi', 'CARHR024170' => 'chi', 'CARHR052640' => 'chi', 'CARHR127970' => 'chi', 'CARHR236210' => 'chi', 'Carub.0001s0293' => 'cru', 'Carub.0001s1006' => 'cru', 'Carub.0001s2326' => 'cru', 'Carub.0004s1553' => 'cru', 'Carub.0007s1226' => 'cru', 'Ca_00356_v3' => 'car', 'Ca_01485_v3' => 'car', 'Ca_13996_v3' => 'car', 'Ca_22720_v3' => 'car', 'Ca_22721_v3' => 'car', 'CBR_g22889' => 'cbr', 'CBR_g2825' => 'cbr', 'Cc02_g13740' => 'ccan', 'Cc05_g07630' => 'ccan', 'Cc05_g11690' => 'ccan', 'Cc07_g02280' => 'ccan', 'Cc11_g14700' => 'ccan', 'CDE02G4095' => 'cde', 'CDE04G1027' => 'cde', 'CDE05G2535' => 'cde', 'CDE06G1566' => 'cde', 'CDE10G0051' => 'cde', 'CDE10G0905' => 'cde', 'Cfa000521' => 'cfa', 'Cfa009146' => 'cfa', 'Cfa014655' => 'cfa', 'Cfa020609' => 'cfa', 'Ciclev10017022m.g' => 'ccl', 'Ciclev10017101m.g' => 'ccl', 'Ciclev10033038m.g' => 'ccl', 'CiPaw.03G180800' => 'cil', 'CiPaw.05G151200' => 'cil', 'CiPaw.08G113200' => 'cil', 'CiPaw.08G113400' => 'cil', 'CiPaw.09G063000' => 'cil', 'CiPaw.11G167200' => 'cil', 'ClCG02G002390' => 'cla', 'ClCG08G018040' => 'cla', 'ClCG11G017760' => 'cla', 'COL.COLO4_18049' => 'col', 'COL.COLO4_24169' => 'col', 'COL.COLO4_31425' => 'col', 'Cpa.g.sc131.93' => 'cpa', 'Cpa.g.sc27.11' => 'cpa', 'Cpa.g.sc69.41' => 'cpa', 'Cpa.g.sc83.85' => 'cpa', 'Cre03.g208000' => 'cre', 'CsaV3_2G024610' => 'csa', 'CsaV3_4G033400' => 'csa', 'CsaV3_7G003050' => 'csa', 'CSS0008125' => 'camsi', 'CSS0012485' => 'camsi', 'CSS0013503' => 'camsi', 'CSS0025519' => 'camsi', 'CSS0029660' => 'camsi', 'CSS0038541' => 'camsi', 'CSS0043563' => 'camsi', 'CSS0044114' => 'camsi', 'CSS0045464' => 'camsi', 'CSS0049707' => 'camsi', 'DCAR_004051' => 'dca', 'DCAR_007089' => 'dca', 'DCAR_008009' => 'dca', 'DCAR_008010' => 'dca', 'DCAR_020997' => 'dca', 'DCAR_026541' => 'dca', 'Dinv06864' => 'din', 'Dinv14942' => 'din', 'Dinv15293' => 'din', 'Dinv20208' => 'din', 'Dinv33494' => 'din', 'Dinv35059' => 'din', 'Dinv40596' => 'din', 'Duzib132G0171' => 'dzi', 'Duzib160G0704' => 'dzi', 'Duzib192G0637' => 'dzi', 'Duzib235G1214' => 'dzi', 'Duzib248G0771' => 'dzi', 'Duzib248G1042' => 'dzi', 'Duzib251G0185' => 'dzi', 'Duzib268G0009' => 'dzi', 'Duzib268G1579' => 'dzi', 'ECA234G1370' => 'eca', 'ECA234G4433' => 'eca', 'ECA246G0137' => 'eca', 'ECA248G1691' => 'eca', 'EL10Ac4g08252' => 'bvu', 'EL10Ac4g09132' => 'bvu', 'EL10Ac6g13675' => 'bvu', 'EL10Ac9g20808' => 'bvu', 'Eucgr.A01855' => 'egr', 'Eucgr.F01173' => 'egr', 'Eucgr.H02606' => 'egr', 'Eucgr.J02206' => 'egr', 'FAN02G2350' => 'fan', 'FAN05G1145' => 'fan', 'FAN07G0924' => 'fan', 'FAN07G1420' => 'fan', 'FAN07G2908' => 'fan', 'FAN11G2384' => 'fan', 'FAN12G0485' => 'fan', 'FAN12G4245' => 'fan', 'FAN16G2776' => 'fan', 'FAN17G1866' => 'fan', 'FAN21G0271' => 'fan', 'FAN21G2499' => 'fan', 'FAN22G0440' => 'fan', 'FAN25G3193' => 'fan', 'FvH4_3g19280' => 'fve', 'FvH4_4g33300' => 'fve', 'FvH4_4g34480' => 'fve', 'FvH4_6g50621' => 'fve', 'Glyma.01G030600' => 'gma', 'Glyma.01G030800' => 'gma', 'Glyma.02G034800' => 'gma', 'Glyma.02G034900' => 'gma', 'Glyma.07G200900' => 'gma', 'Glyma.12G206200' => 'gma', 'Glyma.13G175500' => 'gma', 'Glyma.13G236400' => 'gma', 'Glyma.13G294700' => 'gma', 'Glyma.15G077300' => 'gma', 'Gohir.A03G139700' => 'ghi', 'Gohir.A04G102700' => 'ghi', 'Gohir.A05G159500' => 'ghi', 'Gohir.A05G314700' => 'ghi', 'Gohir.A06G211500' => 'ghi', 'Gohir.A12G142800' => 'ghi', 'Gohir.D02G162500' => 'ghi', 'Gohir.D04G141700' => 'ghi', 'Gohir.D05G162200' => 'ghi', 'Gohir.D05G315900' => 'ghi', 'Gohir.D06G209700' => 'ghi', 'Gohir.D12G147600' => 'ghi', 'Gorai.005G182500' => 'gra', 'Gorai.008G158800' => 'gra', 'Gorai.009G167200' => 'gra', 'Gorai.009G338300' => 'gra', 'Gorai.010G256800' => 'gra', 'Gorai.012G126800' => 'gra', 'GSVIVG01013724001' => 'vvi', 'GSVIVG01020596001' => 'vvi', 'GSVIVG01021104001' => 'vvi', 'GSVIVG01032481001' => 'vvi', 'HanXRQChr01g0014421' => 'han', 'HanXRQChr12g0372681' => 'han', 'HanXRQChr12g0383491' => 'han', 'HanXRQChr15g0474551' => 'han', 'HanXRQChr17g0547891' => 'han', 'HanXRQChr17g0561841' => 'han', 'HanXRQChr17g0569831' => 'han', 'Haze_06384' => 'cav', 'Haze_06389' => 'cav', 'Haze_09404' => 'cav', 'Haze_12180' => 'cav', 'Haze_13232' => 'cav', 'Hma1.2p1_0002F.1_g002180' => 'hma', 'Hma1.2p1_0313F.1_g121710' => 'hma', 'Hma1.2p1_0416F.1_g148370' => 'hma', 'Hma1.2p1_0536F.1_g174050' => 'hma', 'Hma1.2p1_0558F.1_g178570' => 'hma', 'Hma1.2p1_0993F.1_g245550' => 'hma', 'Hma1.2p1_1034F.1_g250420' => 'hma', 'Hma1.2p1_2562F.1_g324440' => 'hma', 'HPP92_019951' => 'vpl', 'HPP92_019962' => 'vpl', 'HPP92_023827' => 'vpl', 'HPP92_023895' => 'vpl', 'Hund01045' => 'sun', 'Hund02239' => 'sun', 'Hund02240' => 'sun', 'Hund05996' => 'sun', 'Hund07913' => 'sun', 'Hund25351' => 'sun', 'Lalb_Chr01g0005111' => 'lal', 'Lalb_Chr03g0029621' => 'lal', 'Lalb_Chr05g0216881' => 'lal', 'Lalb_Chr09g0326371' => 'lal', 'Lalb_Chr15g0089701' => 'lal', 'Lalb_Chr16g0382281' => 'lal', 'Lalb_Chr19g0135141' => 'lal', 'Lalb_Chr20g0121611' => 'lal', 'Lalb_Chr22g0356701' => 'lal', 'Lj1A838G28' => 'lonja', 'Lj2A292T25' => 'lonja', 'Lj2g0002781' => 'lja', 'Lj2g0014762' => 'lja', 'Lj3A1053G44' => 'lonja', 'Lj3g0019868' => 'lja', 'Lj4g0005883' => 'lja', 'Lj4g0010453' => 'lja', 'Lj5A775G26' => 'lonja', 'Lj5C772G4' => 'lonja', 'Lj5C778G0' => 'lonja', 'Lj6C806G10' => 'lonja', 'Lj6g0020371' => 'lja', 'Lj7A591T82' => 'lonja', 'Lj8A108T64' => 'lonja', 'Lsat_1_v5_gn_2_92280' => 'lsa', 'Lsat_1_v5_gn_4_51921' => 'lsa', 'Lsat_1_v5_gn_4_5800' => 'lsa', 'Lsat_1_v5_gn_5_127640' => 'lsa', 'Lsat_1_v5_gn_7_22660' => 'lsa', 'Manes.12G028600' => 'mes', 'Manes.12G089400' => 'mes', 'Manes.13G030200' => 'mes', 'Manes.13G142800' => 'mes', 'Manes.17G048700' => 'mes', 'Mapoly0159s0007' => 'mpo', 'MBI06_g06465_MAGBIO' => 'mbi', 'MBI07_g29114_MAGBIO' => 'mbi', 'MBI10_g11076_MAGBIO' => 'mbi', 'MBI16_g32802_MAGBIO' => 'mbi', 'MCO11G239' => 'mco', 'MD03G1235100' => 'mdo', 'MD09G1034500' => 'mdo', 'MD09G1242500' => 'mdo', 'MD11G1255600' => 'mdo', 'MD13G1092100' => 'mdo', 'MD16G1092700' => 'mdo', 'MD17G1034900' => 'mdo', 'Medtr2g014360' => 'mtr', 'Medtr2g090635' => 'mtr', 'Medtr2g090640' => 'mtr', 'Medtr5g034290' => 'mtr', 'Medtr5g083870' => 'mtr', 'Medtr5g083900' => 'mtr', 'Medtr6g060020' => 'mtr', 'Medtr8g064590' => 'mtr', 'MELO3C010663.2' => 'cme', 'MELO3C018870.2' => 'cme', 'MELO3C025615.2' => 'cme', 'Migut.E00137' => 'egut', 'Migut.H00122' => 'egut', 'Migut.H01475' => 'egut', 'Migut.K01370' => 'egut', 'Migut.M01113' => 'egut', 'MSTRG.13384' => 'ama', 'MSTRG.14208' => 'ama', 'MSTRG.14709' => 'ama', 'MSTRG.15511' => 'ama', 'MSTRG.15856' => 'ama', 'MSTRG.2379' => 'ama', 'MSTRG.7354' => 'ama', 'Nitab4.5_0000203g0080' => 'nta', 'Nitab4.5_0000257g0140' => 'nta', 'Nitab4.5_0001208g0160' => 'nta', 'Nitab4.5_0001928g0070' => 'nta', 'Nitab4.5_0002773g0010' => 'nta', 'Nitab4.5_0002813g0040' => 'nta', 'Nitab4.5_0003076g0030' => 'nta', 'Nitab4.5_0004933g0010' => 'nta', 'Nitab4.5_0005232g0060' => 'nta', 'Nitab4.5_0005523g0010' => 'nta', 'Nitab4.5_0006815g0030' => 'nta', 'Nitab4.5_0007893g0010' => 'nta', 'Nitab4.5_0008993g0010' => 'nta', 'Nn1g04220' => 'nnu', 'Nn1g06428' => 'nnu', 'Nn4g22796' => 'nnu', 'Oeu001100.2' => 'oeu', 'Oeu005399.1' => 'oeu', 'Oeu013598.3' => 'oeu', 'Oeu028548.1' => 'oeu', 'Oeu062987.1' => 'oeu', 'Oeu064799.1' => 'oeu', 'Os01g0238600' => 'osa', 'Os05g0100800' => 'osa', 'Os05g0244600' => 'osa', 'Os06g0103400' => 'osa', 'Os08g0491700' => 'osa', 'Peaxi162Scf00027g00176' => 'pax', 'Peaxi162Scf00059g00919' => 'pax', 'Peaxi162Scf00223g00138' => 'pax', 'Peaxi162Scf00223g01210' => 'pax', 'Peaxi162Scf00338g00310' => 'pax', 'Peaxi162Scf00706g00084' => 'pax', 'Peaxi162Scf00845g00224' => 'pax', 'Peaxi162Scf00926g00519' => 'pax', 'PGR031G3053' => 'pgr', 'PGR042G0817' => 'pgr', 'PGR083G1212' => 'pgr', 'PGR083G1856' => 'pgr', 'PGR119G0471' => 'pgr', 'PGSC0003DMG400009376' => 'stu', 'PGSC0003DMG400015606' => 'stu', 'PGSC0003DMG400021277' => 'stu', 'PGSC0003DMG400021865' => 'stu', 'PGSC0003DMG400022961' => 'stu', 'PGSC0003DMG400030997' => 'stu', 'PGSC0003DMG400031749' => 'stu', 'Phvul.002G071300' => 'pvu', 'Phvul.002G071400' => 'pvu', 'Phvul.005G101100' => 'pvu', 'Phvul.006G183000' => 'pvu', 'Potri.001G396100' => 'ptr', 'Potri.007G137600' => 'ptr', 'Potri.008G189900' => 'ptr', 'Potri.010G041000' => 'ptr', 'Potri.011G114800' => 'ptr', 'Potri.017G014400' => 'ptr', 'Pp3c25_10580' => 'ppa', 'Pp3c6_620' => 'ppa', 'PRCOL_00002852' => 'pco', 'Prupe.1G253600' => 'ppe', 'Prupe.3G134500' => 'ppe', 'Prupe.3G283900' => 'ppe', 'Prupe.4G174100' => 'ppe', 'Psat1g203240' => 'psa', 'Psat2g107160' => 'psa', 'Psat4g123880' => 'psa', 'Psat5g273520' => 'psa', 'PSO017G1272' => 'pso', 'PSO063G1180' => 'pso', 'PSO210G4184' => 'pso', 'PSO478G0006' => 'pso', 'PSO541G5187' => 'pso', 'PSO675G7386' => 'pso', 'PSO832G0788' => 'pso', 'QL03p060254' => 'qlo', 'QL03p060305' => 'qlo', 'QL08p023773' => 'qlo', 'QL08p039995' => 'qlo', 'RcHm_v2.0_Chr2g0107141' => 'rch', 'RcHm_v2.0_Chr2g0127301' => 'rch', 'RcHm_v2.0_Chr2g0127851' => 'rch', 'RcHm_v2.0_Chr2g0171421' => 'rch', 'RcHm_v2.0_Chr4g0442331' => 'rch', 'RcHm_v2.0_Chr4g0442351' => 'rch', 'RcHm_v2.0_Chr4g0443301' => 'rch', 'RcHm_v2.0_Chr4g0443871' => 'rch', 'RcHm_v2.0_Chr5g0032351' => 'rch', 'RcHm_v2.0_Chr5g0050941' => 'rch', 'RcHm_v2.0_Chr6g0246581' => 'rch', 'RcHm_v2.0_Chr7g0209981' => 'rch', 'RcHm_v2.0_Chr7g0219251' => 'rch', 'Rhsim02G0133700' => 'rsi', 'Rhsim06G0203000' => 'rsi', 'Rhsim08G0055100' => 'rsi', 'Rhsim10G0022700' => 'rsi', 'Rhsim11G0019100' => 'rsi', 'Rhsim12G0046600' => 'rsi', 'Sabra07G0110500' => 'sbr', 'Sabra08G0144300' => 'sbr', 'Sabra11G0100800' => 'sbr', 'Sabra16G0259200' => 'sbr', 'Sabra16G0259300' => 'sbr', 'Sabra17G0011600' => 'sbr', 'SalBow6G5427' => 'sbo', 'SalBow7G3733' => 'sbo', 'Sc03g0010230' => 'sci', 'Sc11g0001170' => 'sci', 'Sc12g0003200' => 'sci', 'Sed0001024' => 'sed', 'Sed0004038' => 'sed', 'Sed0008066' => 'sed', 'Sed0013021' => 'sed', 'SEGI_05886' => 'sgi', 'SEGI_08779' => 'sgi', 'SEGI_15256' => 'sgi', 'SEGI_16585' => 'sgi', 'SEGI_23552' => 'sgi', 'SEGI_33427' => 'sgi', 'SEGI_41194' => 'sgi', 'SGA_v2.0_scaffold130G34348' => 'sas', 'SGA_v2.0_scaffold142G35687' => 'sas', 'SGA_v2.0_scaffold30G12467' => 'sas', 'SGA_v2.0_scaffold57G20255' => 'sas', 'SGA_v2.0_scaffold70G23691' => 'sas', 'SMO147G0288' => 'smo', 'SMO165G0137' => 'smo', 'Solyc02g077740.3' => 'sly', 'Solyc05g005510.3' => 'sly', 'Solyc05g006215.1' => 'sly', 'Solyc07g053690.3' => 'sly', 'Solyc10g008190.3' => 'sly', 'Solyc10g150102.1' => 'sly', 'Sopen02g022630' => 'spe', 'Sopen05g001520' => 'spe', 'Sopen05g002230' => 'spe', 'Sopen07g027660' => 'spe', 'Sopen10g003000' => 'spe', 'Sopen10g004050' => 'spe', 'Sp1g02660' => 'spa', 'Sp1g09270' => 'spa', 'Sp1g21150' => 'spa', 'Sp1g24650' => 'spa', 'Sp4g16240' => 'spa', 'Sp7g26420' => 'spa', 'TAR374G1358' => 'tar', 'TAR622G1348' => 'tar', 'TAR624G0581' => 'tar', 'TAR627G1180' => 'tar', 'TAR629G1900' => 'tar', 'THA.LOC104812614' => 'tha', 'THA.LOC104814227' => 'tha', 'THA.LOC104819465' => 'tha', 'THA.LOC104820565' => 'tha', 'THA.LOC104822144' => 'tha', 'THA.LOC104823644' => 'tha', 'THA.LOC104824689' => 'tha', 'Thecc.02G185100' => 'tca', 'Thecc.02G250100' => 'tca', 'Thecc.06G182000' => 'tca', 'Thecc.07G098400' => 'tca', 'Thhalv10008819m.g' => 'esa', 'Thhalv10009070m.g' => 'esa', 'Thhalv10009071m.g' => 'esa', 'Thhalv10017314m.g' => 'esa', 'Thhalv10026479m.g' => 'esa', 'TPR.G11766' => 'tpr', 'TPR.G11773' => 'tpr', 'TPR.G21097' => 'tpr', 'TPR.G6390' => 'tpr', 'TPR.G6459' => 'tpr', 'TPR.G7323' => 'tpr', 'TWI23G1299' => 'twi', 'TWI36G0839' => 'twi', 'TWI38G1524' => 'twi', 'TWI39G0895' => 'twi', 'TWI63G0360' => 'twi', 'unitig_0.g948' => 'ugi', 'unitig_21.g20217' => 'ugi', 'unitig_22.g6748' => 'ugi', 'unitig_26.g9520' => 'ugi', 'unitig_744.g24411' => 'ugi', 'unitig_899.g15570' => 'ugi', 'vmacro01180' => 'vma', 'vmacro11893' => 'vma', 'vmacro15926' => 'vma', 'vmacro18242' => 'vma', 'VMungo0540G0176' => 'vmu', 'VMungo1080G1701' => 'vmu', 'VMungo1215G0082' => 'vmu', 'VMungo1215G1348' => 'vmu', 'Zm00001eb118920' => 'zma', 'Zm00001eb268450' => 'zma', 'Zm00001eb339460' => 'zma', 'Zm00001eb362020' => 'zma', 'Zm00001eb379500' => 'zma' ) $gf_id = 'HOM05D001015' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001015' ) $data_identifier = 'HOM05D001015' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 26, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 12, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 1, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 25, 'bol' => (int) 14, 'bra' => (int) 11, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 8, 'vpl' => (int) 4, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 3, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 7, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 13, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 7, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 5, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb379500' $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